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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ), 'gf_id' => 'HOM05D001061', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001061' ), 'data_identifier' => 'HOM05D001061', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001061', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16810' => 'bna', 'A01p30870' => 'bna', 'A03p31260' => 'bna', 'A03p40700' => 'bna', 'A03p56070' => 'bna', 'A07p08120' => 'bna', 'A09p55030' => 'bna', 'Aa31LG5G1700' => 'aar', 'Aa31LG8G11230' => 'aar', 'Aa31LG8G5400' => 'aar', 'Aa31sc165G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.3297' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3298' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_117.3299' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_228.348' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_340.1809' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.1255' => 'aag', 'Actinidia21002' => 'ach', 'Actinidia21408' => 'ach', 'Actinidia25844' => 'ach', 'Actinidia31031' => 'ach', 'Actinidia34106' => 'ach', 'Ah.07g207270' => 'amhyb', 'Ah.11g047120' => 'amhyb', 'Ah.11g049290' => 'amhyb', 'Ah.14g081830' => 'amhyb', 'AL3G31850' => 'aly', 'AL3G39960' => 'aly', 'AL6G51170' => 'aly', 'AL7G27560' => 'aly', 'Aqoxy2G01549' => 'aox', 'Aqoxy2G02780' => 'aox', 'Aqoxy3G03903' => 'aox', 'Aqoxy5G02884' => 'aox', 'Aqoxy5G02987' => 'aox', 'Aqoxy7G00378' => 'aox', 'Aqoxy7G01745' => 'aox', 'arahy.Tifrunner.gnm1.ann1.353VBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4GZ83K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.89HGDE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9ST7G9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.ERX1RE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HJB560' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.J2PRY0' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JX0W3T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LRQA6N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SJ5U68' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SW4SQ6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U4UA85' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X1CI0G' => 'arhy', 'AT3G18524' => 'ath', 'AT3G24495' => 'ath', 'AT4G02070' => 'ath', 'AT4G25540' => 'ath', 'ATR0605G285' => 'atr', 'ATR0605G342' => 'atr', 'ATR0665G340' => 'atr', 'ATR0680G072' => 'atr', 'ATR0681G268' => 'atr', 'ATR0691G228' => 'atr', 'ATR0691G261' => 'atr', 'ATR0693G191' => 'atr', 'ATR1120G204' => 'atr', 'Atru.chr1.472' => 'acertr', 'Atru.chr5.1014' => 'acertr', 'Atru.chr5.1015' => 'acertr', 'Atru.chr7.1326' => 'acertr', 'Atru.chr7.1327' => 'acertr', 'Atru.chr7.1328' => 'acertr', 'Atru.chr7.1329' => 'acertr', 'Atru.chr9.754' => 'acertr', 'Atru.chr9.755' => 'acertr', 'AUR62011008' => 'cqu', 'AUR62011818' => 'cqu', 'AUR62015994' => 'cqu', 'AUR62021201' => 'cqu', 'AUR62021519' => 'cqu', 'AUR62024662' => 'cqu', 'AUR62032190' => 'cqu', 'AUR62034679' => 'cqu', 'AUR62036955' => 'cqu', 'AUR62043676' => 'cqu', 'BcaB01g02414' => 'bca', 'BcaB04g18987' => 'bca', 'BcaB04g20386' => 'bca', 'BcaB04g20387' => 'bca', 'BcaC01g03695' => 'bca', 'BcaC01g06778' => 'bca', 'BcaC06g32803' => 'bca', 'BcaC08g42864' => 'bca', 'BcaC08g43436' => 'bca', 'BolC1t02033H' => 'bol', 'BolC1t03872H' => 'bol', 'BolC3t16097H' => 'bol', 'BolC3t17247H' => 'bol', 'BolC6t35887H' => 'bol', 'BolC7t45925H' => 'bol', 'BraA01t01635Z' => 'bra', 'BraA01t03215Z' => 'bra', 'BraA03t12306Z' => 'bra', 'BraA03t13227Z' => 'bra', 'BraA03t14678Z' => 'bra', 'BraA09t42048Z' => 'bra', 'BraA10t44832Z' => 'bra', 'C01p21090' => 'bna', 'C01p39230' => 'bna', 'C03p38100' => 'bna', 'C03p49490' => 'bna', 'C06p08040' => 'bna', 'C07p54390' => 'bna', 'CAN.G343.5' => 'can', 'CAN.G343.6' => 'can', 'CAN.G587.78' => 'can', 'CAN.G777.8' => 'can', 'CAN.G913.1' => 'can', 'CAN.G9541.1' => 'can', 'CANSAT21G0044' => 'cansat', 'CANSAT25G3364' => 'cansat', 'CANSAT56G2687' => 'cansat', 'CANSAT80G1355' => 'cansat', 'CARHR093910' => 'chi', 'CARHR100600' => 'chi', 'CARHR232960' => 'chi', 'CARHR249610' => 'chi', 'Carub.0003s1832' => 'cru', 'Carub.0003s2480' => 'cru', 'Carub.0006s3516' => 'cru', 'Carub.0007s1544' => 'cru', 'Ca_02537_v3' => 'car', 'Ca_09207_v3' => 'car', 'Ca_10778_v3' => 'car', 'CBR_g24047' => 'cbr', 'CBR_g31950' => 'cbr', 'CBR_g38452' => 'cbr', 'CBR_g38458' => 'cbr', 'CBR_g41115' => 'cbr', 'CBR_g41117' => 'cbr', 'Cc01_g21360' => 'ccan', 'Cc02_g03080' => 'ccan', 'Cc04_g07520' => 'ccan', 'Cc06_g09530' => 'ccan', 'CDE02G2952' => 'cde', 'CDE10G0399' => 'cde', 'CDE11G1074' => 'cde', 'Cfa003275' => 'cfa', 'Cfa005809' => 'cfa', 'Cfa008311' => 'cfa', 'Cfa021701' => 'cfa', 'Cfa026892' => 'cfa', 'Cfa027083' => 'cfa', 'Cfa027179' => 'cfa', 'Ciclev10004302m.g' => 'ccl', 'Ciclev10007291m.g' => 'ccl', 'Ciclev10018525m.g' => 'ccl', 'Ciclev10018746m.g' => 'ccl', 'CiPaw.03G105500' => 'cil', 'CiPaw.03G233800' => 'cil', 'CiPaw.07G116800' => 'cil', 'CiPaw.08G120000' => 'cil', 'CiPaw.15G126900' => 'cil', 'ClCG05G007980' => 'cla', 'ClCG06G015030' => 'cla', 'ClCG09G005140' => 'cla', 'ClCG11G002520' => 'cla', 'COL.COLO4_14300' => 'col', 'COL.COLO4_22718' => 'col', 'COL.COLO4_23240' => 'col', 'COL.COLO4_34897' => 'col', 'Cpa.g.c35114' => 'cpa', 'Cpa.g.sc107.43' => 'cpa', 'Cpa.g.sc23.115' => 'cpa', 'Cpa.g.sc50.141' => 'cpa', 'Cpa.g.sc549.4' => 'cpa', 'Cre01.g003463' => 'cre', 'Cre05.g235750' => 'cre', 'Cre09.g397845' => 'cre', 'CsaV3_1G003630' => 'csa', 'CsaV3_2G002320' => 'csa', 'CsaV3_3G017020' => 'csa', 'CsaV3_7G029930' => 'csa', 'CSS0007841' => 'camsi', 'CSS0018335' => 'camsi', 'CSS0031012' => 'camsi', 'CSS0031111' => 'camsi', 'CSS0047021' => 'camsi', 'CSS0048539' => 'camsi', 'CSS0050177' => 'camsi', 'DCAR_009363' => 'dca', 'DCAR_010445' => 'dca', 'DCAR_018314' => 'dca', 'DCAR_023182' => 'dca', 'DCAR_029486' => 'dca', 'Dinv28450' => 'din', 'Dinv33112' => 'din', 'Dinv34315' => 'din', 'Dinv36905' => 'din', 'Dinv38588' => 'din', 'Dinv41590' => 'din', 'Duzib138G0299' => 'dzi', 'Duzib187G1842' => 'dzi', 'Duzib205G0347' => 'dzi', 'Duzib205G1584' => 'dzi', 'ECA233G1964' => 'eca', 'ECA236G3764' => 'eca', 'ECA236G3964' => 'eca', 'ECA240G3988' => 'eca', 'ECA246G2868' => 'eca', 'EL10Ac3g05663' => 'bvu', 'EL10Ac5g11250' => 'bvu', 'EL10Ac8g18512' => 'bvu', 'EL10Ac8g19087' => 'bvu', 'EL10As5g23522' => 'bvu', 'Eucgr.B00700' => 'egr', 'Eucgr.C03861' => 'egr', 'Eucgr.K00248' => 'egr', 'Eucgr.K03542' => 'egr', 'Eucgr.L01884' => 'egr', 'FAN01G0948' => 'fan', 'FAN01G1367' => 'fan', 'FAN03G0437' => 'fan', 'FAN04G0918' => 'fan', 'FAN06G0807' => 'fan', 'FAN06G3919' => 'fan', 'FAN08G1716' => 'fan', 'FAN08G2155' => 'fan', 'FAN08G2326' => 'fan', 'FAN10G0894' => 'fan', 'FAN13G0115' => 'fan', 'FAN18G1105' => 'fan', 'FAN18G1805' => 'fan', 'FAN19G2497' => 'fan', 'FAN23G0366' => 'fan', 'FAN26G1132' => 'fan', 'FAN26G2007' => 'fan', 'FAN28G2546' => 'fan', 'FvH4_1g05130' => 'fve', 'FvH4_5g12700' => 'fve', 'FvH4_5g39410' => 'fve', 'FvH4_7g29360' => 'fve', 'Glyma.03G219033' => 'gma', 'Glyma.07G087700' => 'gma', 'Glyma.09G189100' => 'gma', 'Glyma.10G236802' => 'gma', 'Glyma.17G121400' => 'gma', 'Glyma.18G160133' => 'gma', 'Glyma.19G216000' => 'gma', 'Glyma.20G157600' => 'gma', 'Gohir.A06G061200' => 'ghi', 'Gohir.A07G128100' => 'ghi', 'Gohir.A09G046500' => 'ghi', 'Gohir.A12G258300' => 'ghi', 'Gohir.D06G059600' => 'ghi', 'Gohir.D07G132500' => 'ghi', 'Gohir.D08G191100' => 'ghi', 'Gohir.D09G046800' => 'ghi', 'Gohir.D12G259600' => 'ghi', 'Gohir.D13G158800' => 'ghi', 'Gorai.001G143900' => 'gra', 'Gorai.001G187300' => 'gra', 'Gorai.005G190900' => 'gra', 'Gorai.006G063300' => 'gra', 'Gorai.008G278000' => 'gra', 'Gorai.009G340600' => 'gra', 'Gorai.010G069400' => 'gra', 'Gorai.013G179500' => 'gra', 'GSVIVG01005294001' => 'vvi', 'GSVIVG01006611001' => 'vvi', 'GSVIVG01007141001' => 'vvi', 'GSVIVG01008235001' => 'vvi', 'GSVIVG01010538001' => 'vvi', 'GSVIVG01015407001' => 'vvi', 'GSVIVG01028112001' => 'vvi', 'GSVIVG01036825001' => 'vvi', 'HanXRQChr02g0039081' => 'han', 'HanXRQChr05g0141231' => 'han', 'HanXRQChr05g0153891' => 'han', 'HanXRQChr09g0239571' => 'han', 'HanXRQChr10g0293111' => 'han', 'HanXRQChr15g0464141' => 'han', 'Haze_05032' => 'cav', 'Haze_13724' => 'cav', 'Haze_18615' => 'cav', 'Hma1.2p1_0018F.1_g013390' => 'hma', 'Hma1.2p1_0340F.1_g129890' => 'hma', 'Hma1.2p1_2482F.1_g322970' => 'hma', 'Hma1.2p1_2482F.1_g322980' => 'hma', 'Hma1.2p1_3335F.1_g335330' => 'hma', 'HPP92_003629' => 'vpl', 'HPP92_018511' => 'vpl', 'HPP92_018512' => 'vpl', 'HPP92_020859' => 'vpl', 'HPP92_026957' => 'vpl', 'HPP92_026958' => 'vpl', 'Hund09195' => 'sun', 'Hund09627' => 'sun', 'Hund09999' => 'sun', 'Hund11753' => 'sun', 'Lalb_Chr06g0161081' => 'lal', 'Lalb_Chr12g0197571' => 'lal', 'Lalb_Chr12g0197581' => 'lal', 'Lalb_Chr13g0302331' => 'lal', 'Lalb_Chr15g0078211' => 'lal', 'Lalb_Chr18g0049161' => 'lal', 'Lalb_Chr22g0352891' => 'lal', 'Lj1A18T22' => 'lonja', 'Lj1A18T23' => 'lonja', 'Lj1A996G55' => 'lonja', 'Lj1g0020273' => 'lja', 'Lj2g0015753' => 'lja', 'Lj4g0007114' => 'lja', 'Lj5C145G2' => 'lonja', 'Lj5g0016766' => 'lja', 'Lj7C648T3' => 'lonja', 'Lsat_1_v5_gn_1_35500' => 'lsa', 'Lsat_1_v5_gn_1_35520' => 'lsa', 'Lsat_1_v5_gn_2_32260' => 'lsa', 'Lsat_1_v5_gn_4_172561' => 'lsa', 'Lsat_1_v5_gn_4_175920' => 'lsa', 'Lsat_1_v5_gn_5_167300' => 'lsa', 'Lsat_1_v5_gn_5_25080' => 'lsa', 'Lsat_1_v5_gn_5_401' => 'lsa', 'Lsat_1_v5_gn_7_42200' => 'lsa', 'Lsat_1_v5_gn_8_165800' => 'lsa', 'Lsat_1_v5_gn_8_8260' => 'lsa', 'Manes.01G020600' => 'mes', 'Manes.01G227200' => 'mes', 'Manes.03G019100' => 'mes', 'Manes.14G026600' => 'mes', 'Mapoly0042s0086' => 'mpo', 'Mapoly0043s0063' => 'mpo', 'Mapoly0051s0023' => 'mpo', 'Mapoly0120s0004' => 'mpo', 'MBI15_g41903_MAGBIO' => 'mbi', 'MBI18_g09768_MAGBIO' => 'mbi', 'MBI19_g17401_MAGBIO' => 'mbi', 'MBI19_g33852_MAGBIO' => 'mbi', 'MCO01G314' => 'mco', 'MCO04G338' => 'mco', 'MCO07G196' => 'mco', 'MCO08G324' => 'mco', 'MCO09G015' => 'mco', 'MD01G1013000' => 'mdo', 'MD03G1296000' => 'mdo', 'MD06G1211200' => 'mdo', 'MD07G1267600' => 'mdo', 'MD11G1315200' => 'mdo', 'MD11G1315300' => 'mdo', 'MD11G1315400' => 'mdo', 'MD14G1221900' => 'mdo', 'MD15G1187500' => 'mdo', 'Medtr1g100683' => 'mtr', 'Medtr4g111945' => 'mtr', 'Medtr6g086270' => 'mtr', 'Medtr7g109470' => 'mtr', 'MELO3C004552.2' => 'cme', 'MELO3C006901.2' => 'cme', 'MELO3C015928.2' => 'cme', 'MELO3C017287.2' => 'cme', 'MELO3C029137.2' => 'cme', 'Migut.D00086' => 'egut', 'Migut.F00349' => 'egut', 'Migut.I00396' => 'egut', 'Migut.K00458' => 'egut', 'MSTRG.10679' => 'ama', 'MSTRG.11316' => 'ama', 'MSTRG.21683' => 'ama', 'Nitab4.5_0000716g0140' => 'nta', 'Nitab4.5_0001301g0050' => 'nta', 'Nitab4.5_0001432g0030' => 'nta', 'Nitab4.5_0001641g0030' => 'nta', 'Nitab4.5_0001641g0040' => 'nta', 'Nitab4.5_0003365g0010' => 'nta', 'Nitab4.5_0004944g0020' => 'nta', 'Nitab4.5_0008699g0020' => 'nta', 'Nitab4.5_0008811g0030' => 'nta', 'Nn1g01435' => 'nnu', 'Nn2g11780' => 'nnu', 'Nn3g21675' => 'nnu', 'Nn4g23718' => 'nnu', 'Oeu022585.1' => 'oeu', 'Oeu031817.1' => 'oeu', 'Oeu031818.1' => 'oeu', 'Oeu038017.1' => 'oeu', 'Oeu047393.1' => 'oeu', 'Oeu055866.1' => 'oeu', 'Os01g0180600' => 'osa', 'Os04g0682900' => 'osa', 'Os05g0274200' => 'osa', 'Os09g0407600' => 'osa', 'Peaxi162Scf00013g00939' => 'pax', 'Peaxi162Scf00081g02220' => 'pax', 'Peaxi162Scf00560g00212' => 'pax', 'Peaxi162Scf00691g00115' => 'pax', 'Peaxi162Scf01452g00006' => 'pax', 'PGR044G1584' => 'pgr', 'PGR083G2045' => 'pgr', 'PGR102G2005' => 'pgr', 'PGR142G2564' => 'pgr', 'PGSC0003DMG400003135' => 'stu', 'PGSC0003DMG400004071' => 'stu', 'PGSC0003DMG400008417' => 'stu', 'PGSC0003DMG400008418' => 'stu', 'Phvul.001G212500' => 'pvu', 'Phvul.003G177100' => 'pvu', 'Phvul.004G162000' => 'pvu', 'Phvul.007G069100' => 'pvu', 'Potri.006G156314' => 'ptr', 'Potri.006G159200' => 'ptr', 'Potri.008G190950' => 'ptr', 'Potri.008G191051' => 'ptr', 'Potri.012G060000' => 'ptr', 'Potri.014G121601' => 'ptr', 'Potri.014G121701' => 'ptr', 'Potri.015G142900' => 'ptr', 'Pp3c18_14120' => 'ppa', 'Pp3c20_1350' => 'ppa', 'Pp3c22_850' => 'ppa', 'Pp3c24_12860' => 'ppa', 'Pp3c2_16220' => 'ppa', 'Pp3c2_16228' => 'ppa', 'Pp3c9_1020' => 'ppa', 'PRCOL_00001411' => 'pco', 'PRCOL_00002085' => 'pco', 'PRCOL_00003897' => 'pco', 'PRCOL_00004183' => 'pco', 'Prupe.2G293300' => 'ppe', 'Prupe.5G217300' => 'ppe', 'Prupe.6G163500' => 'ppe', 'Prupe.7G228900' => 'ppe', 'Prupe.8G271300' => 'ppe', 'Psat0s3732g0040' => 'psa', 'Psat1g040600' => 'psa', 'Psat3g020000' => 'psa', 'Psat4g043480' => 'psa', 'Psat4g083360' => 'psa', 'Psat4g089160' => 'psa', 'Psat6g199840' => 'psa', 'Psat7g200960' => 'psa', 'PSO063G0257' => 'pso', 'PSO063G4650' => 'pso', 'PSO210G6116' => 'pso', 'PSO675G8279' => 'pso', 'PSO761G0517' => 'pso', 'PSO782G4005' => 'pso', 'PSO782G4375' => 'pso', 'QL02p085695' => 'qlo', 'QL07p024515' => 'qlo', 'QL09p014380' => 'qlo', 'QL10p022714' => 'qlo', 'QL12p020098' => 'qlo', 'RcHm_v2.0_Chr1g0377121' => 'rch', 'RcHm_v2.0_Chr2g0090761' => 'rch', 'RcHm_v2.0_Chr7g0184631' => 'rch', 'RcHm_v2.0_Chr7g0241701' => 'rch', 'Rhsim01G0290300' => 'rsi', 'Rhsim03G0180100' => 'rsi', 'Rhsim03G0244000' => 'rsi', 'Rhsim07G0149300' => 'rsi', 'Rhsim08G0137000' => 'rsi', 'Sabra06G0125000' => 'sbr', 'Sabra06G0125100' => 'sbr', 'Sabra12G0043000' => 'sbr', 'Sabra14G0090200' => 'sbr', 'SalBow1G8271' => 'sbo', 'SalBow3G2997' => 'sbo', 'SalBow4G2537' => 'sbo', 'Sc08g0007370' => 'sci', 'Sc10g0009570' => 'sci', 'Sc17g0000490' => 'sci', 'Sc25g0000470' => 'sci', 'Sed0003655' => 'sed', 'Sed0018541' => 'sed', 'Sed0018816' => 'sed', 'Sed0019890' => 'sed', 'Sed0020923' => 'sed', 'SEGI_04469' => 'sgi', 'SEGI_05084' => 'sgi', 'SEGI_08598' => 'sgi', 'SEGI_09145' => 'sgi', 'SEGI_10033' => 'sgi', 'SEGI_11976' => 'sgi', 'SEGI_13913' => 'sgi', 'SEGI_21793' => 'sgi', 'SEGI_26496' => 'sgi', 'SEGI_28503' => 'sgi', 'SEGI_33643' => 'sgi', 'SEGI_36344' => 'sgi', 'SGA_v2.0_scaffold109G31024' => 'sas', 'SGA_v2.0_scaffold19G08803' => 'sas', 'SGA_v2.0_scaffold334G49065' => 'sas', 'SGA_v2.0_scaffold44G16715' => 'sas', 'SHI02589' => 'shi', 'SHI13790' => 'shi', 'SHI18890' => 'shi', 'SHI20104' => 'shi', 'SHI20105' => 'shi', 'SHI20112' => 'shi', 'SMO047G0001' => 'smo', 'SMO116G0252' => 'smo', 'SMO116G0402' => 'smo', 'SMO195G0022' => 'smo', 'SMO195G0034' => 'smo', 'SMO195G0039' => 'smo', 'SMO195G0050' => 'smo', 'SMO195G0055' => 'smo', 'SMO235G0058' => 'smo', 'SMO339G0051' => 'smo', 'SMO339G0060' => 'smo', 'SMO347G0055' => 'smo', 'SMO347G0174' => 'smo', 'SMO347G0538' => 'smo', 'Solyc01g079520.3' => 'sly', 'Solyc03g025890.2' => 'sly', 'Solyc06g069230.3' => 'sly', 'Solyc07g018340.3' => 'sly', 'Solyc07g018350.2' => 'sly', 'Sopen01g031290' => 'spe', 'Sopen03g004700' => 'spe', 'Sopen06g026490' => 'spe', 'Sopen07g007490' => 'spe', 'Sp3g16620' => 'spa', 'Sp3g22270' => 'spa', 'Sp6g01950' => 'spa', 'Sp7g23570' => 'spa', 'TAR365G0421' => 'tar', 'TAR365G1172' => 'tar', 'TAR622G0276' => 'tar', 'TAR622G0643' => 'tar', 'TAR624G1442' => 'tar', 'TAR636G0015' => 'tar', 'TAR636G1260' => 'tar', 'TAR636G3392' => 'tar', 'THA.LOC104804581' => 'tha', 'THA.LOC104811986' => 'tha', 'THA.LOC104825941' => 'tha', 'Thecc.01G312500' => 'tca', 'Thecc.03G028100' => 'tca', 'Thecc.03G175500' => 'tca', 'Thecc.09G112600' => 'tca', 'Thhalv10002887m.g' => 'esa', 'Thhalv10020006m.g' => 'esa', 'Thhalv10024274m.g' => 'esa', 'Thhalv10027266m.g' => 'esa', 'Thhalv10028364m.g' => 'esa', 'TPR.G14324' => 'tpr', 'TPR.G14330' => 'tpr', 'TPR.G14341' => 'tpr', 'TPR.G26764' => 'tpr', 'TPR.G30580' => 'tpr', 'TPR.G4121' => 'tpr', 'TWI15G0827' => 'twi', 'TWI18G0793' => 'twi', 'TWI23G0875' => 'twi', 'TWI34G0314' => 'twi', 'TWI36G0759' => 'twi', 'unitig_46.g18782' => 'ugi', 'unitig_61.g26195' => 'ugi', 'unitig_85.g27181' => 'ugi', 'unitig_899.g15438' => 'ugi', 'vmacro06204' => 'vma', 'vmacro06688' => 'vma', 'vmacro15113' => 'vma', 'vmacro17676' => 'vma', 'VMungo0464G1924' => 'vmu', 'VMungo0720G3063' => 'vmu', 'VMungo1127G0320' => 'vmu', 'VMungo1215G1249' => 'vmu', 'VMungo1309G1720' => 'vmu', 'VMungo1383G2073' => 'vmu', 'Zm00001eb016860' => 'zma', 'Zm00001eb079080' => 'zma', 'Zm00001eb122180' => 'zma', 'Zm00001eb312280' => 'zma', 'Zm00001eb326520' => 'zma', 'Zm00001eb434000' => 'zma' ) $gf_id = 'HOM05D001061' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001061' ) $data_identifier = 'HOM05D001061' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 4, 'aag' => (int) 6, 'ach' => (int) 5, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 7, 'arhy' => (int) 13, 'ath' => (int) 4, 'atr' => (int) 9, 'acertr' => (int) 9, 'cqu' => (int) 10, 'bca' => (int) 9, 'bol' => (int) 6, 'bra' => (int) 7, 'can' => (int) 6, 'cansat' => (int) 4, 'chi' => (int) 4, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 6, 'ccan' => (int) 4, 'cde' => (int) 3, 'cfa' => (int) 7, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'cre' => (int) 3, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 5, 'din' => (int) 6, 'dzi' => (int) 4, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 5, 'fan' => (int) 18, 'fve' => (int) 4, 'gma' => (int) 8, 'ghi' => (int) 10, 'gra' => (int) 8, 'vvi' => (int) 8, 'han' => (int) 6, 'cav' => (int) 3, 'hma' => (int) 5, 'vpl' => (int) 6, 'sun' => (int) 4, 'lal' => (int) 7, 'lonja' => (int) 5, 'lja' => (int) 4, 'lsa' => (int) 11, 'mes' => (int) 4, 'mpo' => (int) 4, 'mbi' => (int) 4, 'mco' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 4, 'cme' => (int) 5, 'egut' => (int) 4, 'ama' => (int) 3, 'nta' => (int) 9, 'nnu' => (int) 4, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 4, 'pvu' => (int) 4, 'ptr' => (int) 8, 'ppa' => (int) 7, 'pco' => (int) 4, 'ppe' => (int) 5, 'psa' => (int) 8, 'pso' => (int) 7, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 4, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 5, 'sgi' => (int) 12, 'sas' => (int) 4, 'shi' => (int) 6, 'smo' => (int) 14, 'sly' => (int) 5, 'spe' => (int) 4, 'spa' => (int) 4, 'tar' => (int) 8, 'tha' => (int) 3, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434000' $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